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Table 11 SNPs [within genes] selected 1 for the multi-SNP models and goodness-of-fit by indicator

From: Single nucleotide polymorphisms and haplotypes associated with feed efficiency in beef cattle

Indicator

SNPs

RMSE2

MA3

 

General association

Breed-dependent association

Diet-dependent association

T

V

 

RFI

rs109064731

rs108942504 [TMEM40]

rs108942504 [TMEM40]

0.4324

0.4479

3.45%

 

rs109551772

rs110576675

rs109116282

   
 

rs110922588

rs29024448 [RFC5]

rs109452133

   
 

rs111010038

rs41568366 [CD3E]

rs41585447

   
 

rs111012032

rs41659730

rs41660789

   
 

rs29012628

rs42456314 [GPC5]

rs42169106

   
 

rs41588990 [CNOT6L]

 

rs42540326

   
 

rs41654149

     

RADG

rs108964818 [KDELC2]

rs110280556 [UNC5C]

rs41627953

0.0587

0.0686

14.35%

 

rs108983714

rs41574319

rs41693645

   
 

rs109664122

rs41583989 [DTNA]

rs42530614

   
 

rs109945988

rs41590616 [ABCA1]

rs43474365 [SLC12A2]

   
 

rs109957444 [FAM135B]

rs41600243

    
 

rs110732787

rs41854727

    
 

rs41565199

     
 

rs41664711

     
 

rs43557756

     

RIG

rs108964818 [KDELC2]

rs41662450

rs29011654

0.5624

0.6796

17.24%

 

rs109449042

rs41854727

rs41612502

   
 

rs110007573 [FER1L5]

rs42198649 [SPTBN2]

rs43687983

   
 

rs110522962

     
 

rs29012628

     
 

rs41591189 [G3BP2]

     
 

rs41654149

     
 

rs43557756

     

EI

rs109064731

rs108942504 [TMEM40]

rs109198879

0.3131

0.3813

17.89%

 

rs109709275 [GRAMD1B]

rs110206384 [F8]

rs109250591

   
 

rs110122189

rs110576675

rs42378531

   
 

rs110922588

rs41659730

rs43453950

   
 

rs111010038

rs41740922

    
 

rs41624569

rs42456314 [GPC5]

    
 

rs42332515

     

EG

rs108964818 [KDELC2]

rs109880264 [GPD1]

rs110237102

0.0491

0.0741

33.65%

 

rs109945988

rs41650269

rs41611799

   
 

rs110222344 [WDFY4]

rs42250803 [SLC7A11]

rs43196644

   
 

rs110241960

rs42973170

rs43371919 [AGAP1]

   
 

rs41574883

rs43209887

    
 

rs41589654 [CNNM2]

     
 

rs41625303

     
 

rs41664218

     
 

rs42457639 [GPC5]

     
  1. 1P-value < 0.0001.
  2. 2RMSE root means square error for the training (T) and validation (V) data sets.
  3. 3MA model adequacy = 100% * [1 − (RMSE T /RMSE V )].